PRODECOMP: Analysis of 'Fast' NMR Data

Proteins pose a variety of challenges in NMR studies in terms of
their size, native disorder, stability etc. 'Fast' NMR is motivated by the
resulting, but contradicting, requirements on spectrum dimensionality,
resolution and experiment time.

Projection spectroscopy may speed up the recording of very
high-dimensional data (4-7 D) by factors of a thousand or more while maintaining
high resolution. Decompositions provide an optimal tool to analyze 2D
projections of high-dimensional experiments (Fig. A, B): signal-to-noise is not
compromised, projections from several experiments can be combined (Fig. C), and
the output is well suited for automated interpretation, e.g. assignment by the
SHABBA protocol (Fig. D top), and structure determination (Fig. D bottom).

The PRODECOMP tool for decomposition of NMR projections is based on a solid
mathematical procedure, warranting its robustness and efficiency. PRODECOMP is
tightly interweaved with the TopSpin (Bruker) recording and processing software,
and fully integrated into the CCPN data model. Its Python code is freely
available.

A) Examples of 2D projections recorded instead of
high-dimensional spectra (the latter are represented by dotted 3D cubes). The
colors indicate two different experiments, e.g. based on scalar coupling only
(red) or including NOE transfers (blue). B) Each stack of projections may be
analyzed separately, but more efficient and informative is a simultaneous
analysis of projections from several experiments.

C) Decompositions for the DNA-binding protein histone G1
using projections from 5 experiments (including those in A) yield 15-dimensional
data, illustrated here by the component for Phe 66. The chemical shifts provided
on the left allow for a straightforward sequential assignment, while the right
side (lower 4 panels) provides distance restraints for structure calculations.